RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11929
(433 letters)
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding,
DNA-binding, nucleus, phosph ribonucleoprotein,
RNA-binding, RNA binding protein; NMR {Homo sapiens}
Length = 160
Score = 142 bits (359), Expect = 6e-41
Identities = 71/185 (38%), Positives = 110/185 (59%), Gaps = 27/185 (14%)
Query: 11 EDTLITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSV 70
++ +T+R L H E+ +IG G V+++R+ESGA+I+I++G CP+RI+T++G
Sbjct: 1 KNVTLTIRLLMHGK----EVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPT 56
Query: 71 DNSSTSSVETGYPGHTLWVTSVDNVCTAYNFMCRSLEDYHINR-NRMENCSPQPLQLKLV 129
+ + A+ + LE+ + S P+ L+LV
Sbjct: 57 NA----------------------IFKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLV 94
Query: 130 IPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQIC 189
+PA+ CGSLIGKGGCKIK+IR+ +GA VQVA DMLP STER +T+ G P +I + + QIC
Sbjct: 95 VPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAGIPQSIIECVKQIC 154
Query: 190 LVLIE 194
+V++E
Sbjct: 155 VVMLE 159
Score = 69.0 bits (169), Expect = 3e-14
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 121 PQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDT 180
L ++L++ GS+IGK G +K +R+ SGA + ++ ERI+T+ G +
Sbjct: 2 NVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE---GNCPERIITLAGPTNA 58
Query: 181 ISQAIYQICLVLIEC 195
I +A I L E
Sbjct: 59 IFKAFAMIIDKLEED 73
Score = 55.2 bits (133), Expect = 2e-09
Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 2/79 (2%)
Query: 278 SGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINI--HTGTESHKKMFH 335
+ V +V+ G +IGK G ++ EIR+ +GAQ+ + S ++
Sbjct: 79 TNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAIT 138
Query: 336 IQGCQEAVSLAQYLINMCI 354
I G +++ I + +
Sbjct: 139 IAGIPQSIIECVKQICVVM 157
Score = 47.1 bits (112), Expect = 1e-06
Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 3/105 (2%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVSLAQ 347
+ +++ G +IGK G + ++R+ SGA+INI G +++ + G A+ A
Sbjct: 5 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEG-NCPERIITLAGPTNAIFKAF 63
Query: 348 YLINMCIELQKNNTTNTSDNPEPADLDAAISAFMTASVNSSLIEK 392
+I +E +++ S + + + AS SLI K
Sbjct: 64 AMIIDKLEEDISSSMTNSTAASRPPVTLRL--VVPASQCGSLIGK 106
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH
domain, hairpin, RNA-binding protein complex; HET: 5BU;
1.94A {Homo sapiens} PDB: 2ann_A*
Length = 178
Score = 125 bits (316), Expect = 2e-34
Identities = 43/196 (21%), Positives = 79/196 (40%), Gaps = 42/196 (21%)
Query: 15 ITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGA-----CPDRIVTVSGS 69
++ L S +IG GG + +L+KE+GA I ++ +R+ + G+
Sbjct: 6 YFLKVLIPSY----AAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGT 61
Query: 70 VDNSSTSSVETGYPGHTLWVTSVDNVCTAYNFMCRSLEDYHINRNRMENCSPQP------ 123
++ + + F+ + + N + E S
Sbjct: 62 IEA----------------------LNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVN 99
Query: 124 ----LQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASD-MLPMSTERIVTVHGNP 178
Q+K+++P + G +IGKGG +K I + SGA VQ++ R+VTV G P
Sbjct: 100 PDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAWVQLSQKPDGINLQNRVVTVSGEP 159
Query: 179 DTISQAIYQICLVLIE 194
+ +A+ I + E
Sbjct: 160 EQNRKAVELIIQKIQE 175
Score = 74.9 bits (184), Expect = 4e-16
Identities = 25/98 (25%), Positives = 44/98 (44%), Gaps = 2/98 (2%)
Query: 121 PQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQV--ASDMLPMSTERIVTVHGNP 178
LK++IP+ GS+IGKGG I ++ +GA +++ + D P +TER+ + G
Sbjct: 3 GSQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTI 62
Query: 179 DTISQAIYQICLVLIECTLQVVKGAVIPYEPKTMNAGP 216
+ ++ I + E V K + P
Sbjct: 63 EALNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVNP 100
Score = 59.5 bits (144), Expect = 9e-11
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 3/87 (3%)
Query: 272 SGSRVKSGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINI---HTGTE 328
S ++ D + +I++ + AG +IGK G+ + I + SGA + + G
Sbjct: 88 PVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAWVQLSQKPDGIN 147
Query: 329 SHKKMFHIQGCQEAVSLAQYLINMCIE 355
++ + G E A LI I+
Sbjct: 148 LQNRVVTVSGEPEQNRKAVELIIQKIQ 174
Score = 47.2 bits (112), Expect = 2e-06
Identities = 18/93 (19%), Positives = 38/93 (40%), Gaps = 4/93 (4%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE----SHKKMFHIQGCQEAV 343
++++ AG +IGK G ++++++ +GA I + + + +++ IQG EA+
Sbjct: 6 YFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEAL 65
Query: 344 SLAQYLINMCIELQKNNTTNTSDNPEPADLDAA 376
+ I I N T
Sbjct: 66 NAVHGFIAEKIREMPQNVAKTEPVSILQPQTTV 98
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain,
cell projection, cytoplasm, nucleus, phosphoprotein,
translation regulation; 2.75A {Homo sapiens}
Length = 163
Score = 122 bits (308), Expect = 2e-33
Identities = 35/185 (18%), Positives = 69/185 (37%), Gaps = 34/185 (18%)
Query: 15 ITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACP---DRIVTVSGSVD 71
++ + + +IG G +++L + + A I I P R+V ++G +
Sbjct: 3 EMVQVF----IPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPE 58
Query: 72 NSSTSSVETGYPGHTLWVTSVDNVCTAYNFMCRSLEDYHINRNRMENCSPQPLQLKLVIP 131
A + L++ N L+ + +P
Sbjct: 59 A----------------------QFKAQGRIYGKLKE----ENFFGPKEEVKLETHIRVP 92
Query: 132 ATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMST-ERIVTVHGNPDTISQAIYQICL 190
A+ G +IGKGG + ++++L+ A V V D P + IV + G+ A +I
Sbjct: 93 ASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVIVKIIGHFYASQMAQRKIRD 152
Query: 191 VLIEC 195
+L +
Sbjct: 153 ILAQV 157
Score = 75.2 bits (185), Expect = 3e-16
Identities = 22/73 (30%), Positives = 39/73 (53%)
Query: 122 QPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTI 181
+ +++ IPA G++IGK G IK + + A++++A P S R+V + G P+
Sbjct: 1 EQEMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQ 60
Query: 182 SQAIYQICLVLIE 194
+A +I L E
Sbjct: 61 FKAQGRIYGKLKE 73
Score = 56.7 bits (137), Expect = 7e-10
Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 3/86 (3%)
Query: 277 KSGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGT---ESHKKM 333
++ + +ET I + AG VIGK G + E++ ++ A++ + E+ + +
Sbjct: 74 ENFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVI 133
Query: 334 FHIQGCQEAVSLAQYLINMCIELQKN 359
I G A +AQ I + K
Sbjct: 134 VKIIGHFYASQMAQRKIRDILAQVKQ 159
Score = 45.1 bits (107), Expect = 7e-06
Identities = 17/82 (20%), Positives = 31/82 (37%), Gaps = 2/82 (2%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIH--TGTESHKKMFHIQGCQEAVSL 345
++ + G +IGK G + ++ + + A I I +S +M I G EA
Sbjct: 3 EMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFK 62
Query: 346 AQYLINMCIELQKNNTTNTSDN 367
AQ I ++ +
Sbjct: 63 AQGRIYGKLKEENFFGPKEEVK 84
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA
binding protein, KH domain, KSRP, posttranscriptional
regulation, mRNA decay; NMR {Homo sapiens}
Length = 164
Score = 114 bits (288), Expect = 1e-30
Identities = 31/170 (18%), Positives = 58/170 (34%), Gaps = 29/170 (17%)
Query: 25 VNVNEISCLIGPGGCIVRRLRKESGAKISIT----DGACPDRIVTVSGSVDNSSTSSVET 80
+ + +IG GG +++L++ +G K+ + D+ + + G
Sbjct: 8 IPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYK-------- 59
Query: 81 GYPGHTLWVTSVDNVCTAYNFMCRSLEDYHINRNRMEN--CSPQPLQLKLVIPATHCGSL 138
V A + L + N S + + +P G +
Sbjct: 60 --------------VQQACEMVMDILRERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVV 105
Query: 139 IGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQI 188
IG+ G IK I++ +G +Q E+I + G PD A I
Sbjct: 106 IGRSGEMIKKIQNDAGVRIQF-KQDDGTGPEKIAHIMGPPDRCEHAARII 154
Score = 69.0 bits (169), Expect = 3e-14
Identities = 18/68 (26%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 126 LKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDM-LPMSTERIVTVHGNPDTISQA 184
+++IPA G +IGKGG IK +++ +G + + D + ++ + + G+P + QA
Sbjct: 4 QEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQA 63
Query: 185 IYQICLVL 192
+ +L
Sbjct: 64 CEMVMDIL 71
Score = 55.2 bits (133), Expect = 3e-09
Identities = 16/90 (17%), Positives = 33/90 (36%), Gaps = 1/90 (1%)
Query: 267 ALAALSGSRVKSGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIH-T 325
L + ++ + G VIG++G + +I+ +G +I
Sbjct: 70 ILRERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQD 129
Query: 326 GTESHKKMFHIQGCQEAVSLAQYLINMCIE 355
+K+ HI G + A +IN ++
Sbjct: 130 DGTGPEKIAHIMGPPDRCEHAARIINDLLQ 159
Score = 44.8 bits (106), Expect = 8e-06
Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 3/85 (3%)
Query: 291 EIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE---SHKKMFHIQGCQEAVSLAQ 347
EI++ AG VIGK G + ++++ +G ++ + + K I G V A
Sbjct: 5 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQAC 64
Query: 348 YLINMCIELQKNNTTNTSDNPEPAD 372
++ + + +
Sbjct: 65 EMVMDILRERDQGGFGDRNEYGSRI 89
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET:
DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1
Length = 174
Score = 114 bits (287), Expect = 2e-30
Identities = 35/179 (19%), Positives = 66/179 (36%), Gaps = 18/179 (10%)
Query: 16 TMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISIT--DGACPDRIVTVSGSVDNS 73
+ + +IG G ++++++ ++G +I DG P+RI ++G D +
Sbjct: 4 MIDVPIPRF----AVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRA 59
Query: 74 STSSVETGYPGHTLWVTSVDNVCTAYNFMCRSLEDYHINRNRMENCSPQP--LQLKLVIP 131
+ + +V N P + ++P
Sbjct: 60 Q--------HAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVP 111
Query: 132 ATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMS--TERIVTVHGNPDTISQAIYQI 188
G +IGKGG IK I SGA +++ + P + ++ T+ G P I A I
Sbjct: 112 TGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLI 170
Score = 76.1 bits (187), Expect = 2e-16
Identities = 23/92 (25%), Positives = 35/92 (38%), Gaps = 1/92 (1%)
Query: 125 QLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQA 184
+ + IP G +IG+ G IK I++ +G +Q D + ERI + G PD A
Sbjct: 4 MIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDD-GTTPERIAQITGPPDRAQHA 62
Query: 185 IYQICLVLIECTLQVVKGAVIPYEPKTMNAGP 216
I +L G + G
Sbjct: 63 AEIITDLLRSVQAGNPGGPGPGGRGRGRGQGN 94
Score = 57.6 bits (139), Expect = 5e-10
Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 272 SGSRVKSGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHT----GT 327
G + E ++ G +IGK G + I Q SGA+I +
Sbjct: 88 RGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNA 147
Query: 328 ESHKKMFHIQGCQEAVSLAQYLINMCI 354
+ + K+F I+G + + A+ LI I
Sbjct: 148 DPNMKLFTIRGTPQQIDYARQLIEEKI 174
Score = 46.0 bits (109), Expect = 3e-06
Identities = 23/141 (16%), Positives = 45/141 (31%), Gaps = 13/141 (9%)
Query: 291 EIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE-SHKKMFHIQGCQEAVSLAQYL 349
++ + G VIG+ G + +I+ +G +I + +++ I G + A +
Sbjct: 6 DVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRAQHAAEI 65
Query: 350 INMCIE--LQKNNTTNTSDNPEPADLDAAISAFMTASVNSSLIEKPTPHPGSMVTLGGLS 407
I + N + + PT G ++ GG
Sbjct: 66 ITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGG-- 123
Query: 408 ELLANIAASNVKSTVQTTGAY 428
+KS Q +GA
Sbjct: 124 --------ETIKSISQQSGAR 136
>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain,
alpha-beta fold RNA-binding motif, immune system; 2.00A
{Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A
Length = 76
Score = 78.1 bits (193), Expect = 3e-18
Identities = 20/66 (30%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 125 QLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVA--SDMLPMSTERIVTVHGNPDTIS 182
+++ +P G+++GKGG + + ++L+GA +Q++ + LP + R VT+ G+P
Sbjct: 4 LVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQ 63
Query: 183 QAIYQI 188
A Y I
Sbjct: 64 AAQYLI 69
Score = 66.5 bits (163), Expect = 3e-14
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 290 TEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE----SHKKMFHIQGCQEAVSL 345
E+ + +++ G ++GK G L+E ++++GA+I I E + + I G A
Sbjct: 5 VEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQA 64
Query: 346 AQYLINMCIE 355
AQYLI+ +
Sbjct: 65 AQYLISQRVT 74
Score = 45.3 bits (108), Expect = 9e-07
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 30 ISCLIGPGGCIVRRLRKESGAKISITDGA-----CPDRIVTVSGSVDN 72
+ ++G GG + ++ +GA+I I+ +R VT++GS
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAA 61
>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding
motif, protein/RNA structure, RNA binding protein/RNA
complex; 2.40A {Homo sapiens} SCOP: d.51.1.1
Length = 87
Score = 77.8 bits (192), Expect = 4e-18
Identities = 20/66 (30%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 125 QLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVA--SDMLPMSTERIVTVHGNPDTIS 182
+++ +P G+++GKGG + + ++L+GA +Q++ + LP + R VT+ G+P
Sbjct: 4 LVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQ 63
Query: 183 QAIYQI 188
A Y I
Sbjct: 64 AAQYLI 69
Score = 67.7 bits (166), Expect = 1e-14
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 290 TEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE----SHKKMFHIQGCQEAVSL 345
EI + +++ G ++GK G L+E ++++GA+I I E + + I G A
Sbjct: 5 VEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQA 64
Query: 346 AQYLINMCIELQKNN 360
AQYLI+ + ++
Sbjct: 65 AQYLISQRVTYEQGV 79
Score = 46.2 bits (110), Expect = 6e-07
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 30 ISCLIGPGGCIVRRLRKESGAKISITDGA-----CPDRIVTVSGSVDN 72
+ ++G GG + ++ +GA+I I+ +R VT++GS
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAA 61
>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta
fold, DNA binding protein; 0.95A {Homo sapiens} SCOP:
d.51.1.1 PDB: 1zzj_A 1zzi_A
Length = 82
Score = 76.2 bits (188), Expect = 1e-17
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 120 SPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPD 179
+ ++ IP GS+IGKGG +IK IR SGA++++ + L S +RI+T+ G D
Sbjct: 3 MGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI-DEPLEGSEDRIITITGTQD 61
Query: 180 TISQAIYQICLVLIE 194
I A Y + + +
Sbjct: 62 QIQNAQYLLQNSVKQ 76
Score = 66.2 bits (162), Expect = 4e-14
Identities = 24/69 (34%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIH-TGTESHKKMFHIQGCQEAVSLA 346
+ T++ + D+AG +IGK G R+ +IR SGA I I S ++ I G Q+ + A
Sbjct: 7 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNA 66
Query: 347 QYLINMCIE 355
QYL+ ++
Sbjct: 67 QYLLQNSVK 75
Score = 47.7 bits (114), Expect = 1e-07
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISITD--GACPDRIVTVSGSVDN 72
++ + +IG GG ++++R ESGA I I + DRI+T++G+ D
Sbjct: 12 TIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQ 62
>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA
binding protein/DNA complex; 1.60A {Homo sapiens}
Length = 76
Score = 75.4 bits (186), Expect = 3e-17
Identities = 27/68 (39%), Positives = 41/68 (60%), Gaps = 1/68 (1%)
Query: 121 PQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDT 180
Q +L IP G +IG+ G KI +IR +SGA +++A+ + ST+R VT+ G+ +
Sbjct: 2 AQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANP-VEGSTDRQVTITGSAAS 60
Query: 181 ISQAIYQI 188
IS A Y I
Sbjct: 61 ISLAQYLI 68
Score = 65.8 bits (161), Expect = 5e-14
Identities = 29/69 (42%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE-SHKKMFHIQGCQEAVSLA 346
E+ + +D+ GC+IG+ G+++ EIRQ+SGAQI I E S + I G ++SLA
Sbjct: 5 TSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLA 64
Query: 347 QYLINMCIE 355
QYLIN+ +
Sbjct: 65 QYLINVRLS 73
Score = 46.5 bits (111), Expect = 4e-07
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 30 ISCLIGPGGCIVRRLRKESGAKISITD--GACPDRIVTVSGSVDN 72
I C+IG G + +R+ SGA+I I + DR VT++GS +
Sbjct: 16 IGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAAS 60
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo
sapiens}
Length = 85
Score = 75.1 bits (185), Expect = 3e-17
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 118 NCSPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDM-LPMSTERIVTVHG 176
N +++IPA G +IGKGG IK +++ +G + + D + ++ + + G
Sbjct: 8 NGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIG 67
Query: 177 NPDTISQAIYQICLVLIE 194
+P + QA + +L E
Sbjct: 68 DPYKVQQACEMVMDILRE 85
Score = 60.1 bits (146), Expect = 7e-12
Identities = 16/80 (20%), Positives = 34/80 (42%), Gaps = 3/80 (3%)
Query: 279 GGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINI---HTGTESHKKMFH 335
+ G + EI++ AG VIGK G + ++++ +G ++ + + + K
Sbjct: 5 DNANGGQNGTVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLR 64
Query: 336 IQGCQEAVSLAQYLINMCIE 355
I G V A ++ +
Sbjct: 65 IIGDPYKVQQACEMVMDILR 84
Score = 45.4 bits (108), Expect = 1e-06
Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISI----TDGACPDRIVTVSGSVDN 72
+ + +IG GG +++L++ +G K+ + + D+ + + G
Sbjct: 19 MIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYK 71
>1x4m_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.51.1.1
Length = 94
Score = 75.5 bits (186), Expect = 3e-17
Identities = 18/81 (22%), Positives = 39/81 (48%), Gaps = 1/81 (1%)
Query: 115 RMENCSPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASD-MLPMSTERIVT 173
P +++IPA+ G +IGKGG IK +++ +G + + D ++ +
Sbjct: 6 SGHGDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLR 65
Query: 174 VHGNPDTISQAIYQICLVLIE 194
+ G+P + QA + ++ +
Sbjct: 66 ITGDPYKVQQAKEMVLELIRD 86
Score = 60.5 bits (147), Expect = 6e-12
Identities = 20/87 (22%), Positives = 35/87 (40%), Gaps = 3/87 (3%)
Query: 278 SGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINI---HTGTESHKKMF 334
S G G EI++ AG VIGK G + ++++ +G ++ + K
Sbjct: 5 SSGHGDGPGNAVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPL 64
Query: 335 HIQGCQEAVSLAQYLINMCIELQKNNT 361
I G V A+ ++ I Q +
Sbjct: 65 RITGDPYKVQQAKEMVLELIRDQGSGP 91
Score = 43.6 bits (103), Expect = 6e-06
Identities = 9/49 (18%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 28 NEISCLIGPGGCIVRRLRKESGAKISI----TDGACPDRIVTVSGSVDN 72
++ +IG GG +++L++ +G K+ + D+ + ++G
Sbjct: 24 SKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYK 72
>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA
binding protein, transcription factor, hnRNP K, CT
element, C-MYC oncogene; NMR {Homo sapiens} SCOP:
d.51.1.1 PDB: 1khm_A
Length = 89
Score = 75.1 bits (185), Expect = 5e-17
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 120 SPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPD 179
+ ++ IP GS+IGKGG +IK IR SGA++++ + L S +RI+T+ G D
Sbjct: 10 GGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI-DEPLEGSEDRIITITGTQD 68
Query: 180 TISQAIYQICLVLIE 194
I A Y + + +
Sbjct: 69 QIQNAQYLLQNSVKQ 83
Score = 68.9 bits (169), Expect = 7e-15
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 278 SGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE-SHKKMFHI 336
D G + T++ + D+AG +IGK G R+ +IR SGA I I E S ++ I
Sbjct: 4 MSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITI 63
Query: 337 QGCQEAVSLAQYLINMCIE 355
G Q+ + AQYL+ ++
Sbjct: 64 TGTQDQIQNAQYLLQNSVK 82
Score = 48.1 bits (115), Expect = 1e-07
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 30 ISCLIGPGGCIVRRLRKESGAKISITD--GACPDRIVTVSGSVDN 72
+IG GG ++++R ESGA I I + DRI+T++G+ D
Sbjct: 25 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQ 69
>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA
binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1
Length = 82
Score = 74.6 bits (184), Expect = 5e-17
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 121 PQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDT 180
+L IP G +IG+ G I +IR +SGA +++A+ + S+ R VT+ G+ +
Sbjct: 3 GSQTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPV-EGSSGRQVTITGSAAS 61
Query: 181 ISQAIYQI 188
IS A Y I
Sbjct: 62 ISLAQYLI 69
Score = 67.7 bits (166), Expect = 1e-14
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIH-TGTESHKKMFHIQGCQEAVSLA 346
E+ + +++ GC+IG+ G+ + EIRQ+SGAQI I S + I G ++SLA
Sbjct: 6 TTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASISLA 65
Query: 347 QYLINMCIELQKNN 360
QYLIN + +K
Sbjct: 66 QYLINARLSSEKGM 79
Score = 47.3 bits (113), Expect = 2e-07
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 30 ISCLIGPGGCIVRRLRKESGAKISITD--GACPDRIVTVSGSVDN 72
I C+IG G + +R+ SGA+I I + R VT++GS +
Sbjct: 17 IGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAAS 61
>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding
protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1
PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A*
Length = 73
Score = 74.2 bits (183), Expect = 6e-17
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 122 QPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTI 181
L ++L++ GS+IGK G +K +R+ SGA + ++ P ERI+T+ G + I
Sbjct: 3 VTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCP---ERIITLAGPTNAI 59
Query: 182 SQAIYQICLVLIE 194
+A I L E
Sbjct: 60 FKAFAMIIDKLEE 72
Score = 70.0 bits (172), Expect = 2e-15
Identities = 23/62 (37%), Positives = 42/62 (67%), Gaps = 4/62 (6%)
Query: 11 EDTLITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSV 70
++ +T+R L H E+ +IG G V+++R+ESGA+I+I++G CP+RI+T++G
Sbjct: 1 KNVTLTIRLLMHGK----EVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPT 56
Query: 71 DN 72
+
Sbjct: 57 NA 58
Score = 49.6 bits (119), Expect = 2e-08
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Query: 285 DDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVS 344
+ + +++ G +IGK G + ++R+ SGA+INI G +++ + G A+
Sbjct: 2 NVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGN-CPERIITLAGPTNAIF 60
Query: 345 LAQYLINMCIE 355
A +I +E
Sbjct: 61 KAFAMIIDKLE 71
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 106
Score = 74.8 bits (184), Expect = 8e-17
Identities = 22/97 (22%), Positives = 34/97 (35%), Gaps = 1/97 (1%)
Query: 120 SPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPD 179
S + + +P G +IG+ G IK I++ +G +Q D E+I + G PD
Sbjct: 7 SRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD-GTGPEKIAHIMGPPD 65
Query: 180 TISQAIYQICLVLIECTLQVVKGAVIPYEPKTMNAGP 216
A I +L P P
Sbjct: 66 RCEHAARIINDLLQSLRSGPPGPPGGPGMPPGGRGRG 102
Score = 57.5 bits (139), Expect = 1e-10
Identities = 19/92 (20%), Positives = 37/92 (40%), Gaps = 2/92 (2%)
Query: 279 GGKDTGDDFVET-EIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE-SHKKMFHI 336
G TG ++ + G VIG++G + +I+ +G +I +K+ HI
Sbjct: 1 GAMATGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHI 60
Query: 337 QGCQEAVSLAQYLINMCIELQKNNTTNTSDNP 368
G + A +IN ++ ++ P
Sbjct: 61 MGPPDRCEHAARIINDLLQSLRSGPPGPPGGP 92
Score = 46.7 bits (111), Expect = 7e-07
Identities = 12/51 (23%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISIT--DGACPDRIVTVSGSVDN 72
V + + +IG G ++++++ ++G +I DG P++I + G D
Sbjct: 16 PVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDR 66
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 107
Score = 74.5 bits (183), Expect = 1e-16
Identities = 26/109 (23%), Positives = 44/109 (40%), Gaps = 11/109 (10%)
Query: 120 SPQPLQ-LKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMS--TERIVTVHG 176
+ P + IP CG +IG+GG +K I +GA V+++ + P ++ + G
Sbjct: 2 AMAPGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRG 61
Query: 177 NPDTISQAIYQICLVLIECTLQVVKGAVIPYEPKTMNAGPVILSGGQAY 225
+P I A I + ++G + P P GP G
Sbjct: 62 SPQQIDHAKQLIE--------EKIEGPLCPVGPGPGGPGPAGPMGPFNP 102
Score = 61.4 bits (149), Expect = 5e-12
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 4/87 (4%)
Query: 289 ETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHK----KMFHIQGCQEAVS 344
E + G VIG+ G + I Q +GA + I + K+F I+G + +
Sbjct: 8 EMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQID 67
Query: 345 LAQYLINMCIELQKNNTTNTSDNPEPA 371
A+ LI IE P PA
Sbjct: 68 HAKQLIEEKIEGPLCPVGPGPGGPGPA 94
Score = 41.8 bits (98), Expect = 4e-05
Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACP-----DRIVTVSGSVDN 72
S+ ++ +IG GG V+ + +++GA + I+ P ++ + GS
Sbjct: 12 SIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQ 65
>1we8_A Tudor and KH domain containing protein; structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Mus musculus} SCOP: d.51.1.1
Length = 104
Score = 70.6 bits (173), Expect = 3e-15
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 122 QPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASD-MLPMSTERIVTVHGNPDT 180
P+ +L +P G +IG+GG I+ I SGA + + + R++ + G
Sbjct: 13 TPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKE 72
Query: 181 ISQAIYQICLVLIE 194
++ A + I + E
Sbjct: 73 VAAAKHLILEKVSE 86
Score = 61.0 bits (148), Expect = 6e-12
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 3/81 (3%)
Query: 278 SGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINI---HTGTESHKKMF 334
S G T + V ++ + G +IG+ G + I + SGA+I GT ++
Sbjct: 5 SSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLI 64
Query: 335 HIQGCQEAVSLAQYLINMCIE 355
I G Q+ V+ A++LI +
Sbjct: 65 KISGTQKEVAAAKHLILEKVS 85
Score = 45.6 bits (108), Expect = 2e-06
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISITD----GACPDRIVTVSGSVDN 72
SV + +IG GG +R + K SGAKI+ R++ +SG+
Sbjct: 20 SVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKE 72
>1x4n_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.51.1.1 PDB: 2opu_A
Length = 92
Score = 67.8 bits (166), Expect = 1e-14
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 1/69 (1%)
Query: 120 SPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPD 179
+ + +P G +IG+GG +I I+ SG +Q+A D ER + G P+
Sbjct: 11 QRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDS-GGLPERSCMLTGTPE 69
Query: 180 TISQAIYQI 188
++ A +
Sbjct: 70 SVQSAKRLL 78
Score = 67.8 bits (166), Expect = 2e-14
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 1/84 (1%)
Query: 278 SGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTE-SHKKMFHI 336
S G + E + D + G +IG+ G ++ I+Q SG +I I + ++ +
Sbjct: 5 SSGHQQQRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCML 64
Query: 337 QGCQEAVSLAQYLINMCIELQKNN 360
G E+V A+ L++ +E ++
Sbjct: 65 TGTPESVQSAKRLLDQIVEKGRSG 88
Score = 47.0 bits (112), Expect = 3e-07
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 30 ISCLIGPGGCIVRRLRKESGAKISITD--GACPDRIVTVSGSVDN 72
+ +IG GG + R+++ESG KI I G P+R ++G+ ++
Sbjct: 26 VGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPES 70
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 94
Score = 55.5 bits (134), Expect = 4e-10
Identities = 14/63 (22%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 126 LKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAI 185
+ IP H +IGK G K++D+ + +Q+ P + + G + I +A
Sbjct: 19 ATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPR---PDDPSNQIKITGTKEGIEKAR 75
Query: 186 YQI 188
+++
Sbjct: 76 HEV 78
Score = 47.0 bits (112), Expect = 4e-07
Identities = 9/49 (18%), Positives = 21/49 (42%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSVDN 72
++ +IG G ++ L ++ KI I P + ++G+ +
Sbjct: 22 AIPKEHHRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITGTKEG 70
Score = 42.0 bits (99), Expect = 2e-05
Identities = 14/78 (17%), Positives = 31/78 (39%), Gaps = 1/78 (1%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVSLAQ 347
+ + + VIGK G +L ++ + +I I + I G +E + A+
Sbjct: 17 ASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIP-RPDDPSNQIKITGTKEGIEKAR 75
Query: 348 YLINMCIELQKNNTTNTS 365
+ + + Q + +S
Sbjct: 76 HEVLLISAEQDKRSGPSS 93
>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 97
Score = 53.7 bits (129), Expect = 2e-09
Identities = 13/64 (20%), Positives = 23/64 (35%)
Query: 125 QLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQA 184
+L + + + +IG+ G I IR N+Q + +T+ G A
Sbjct: 18 KLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEAA 77
Query: 185 IYQI 188
I
Sbjct: 78 RDAI 81
Score = 41.3 bits (97), Expect = 4e-05
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 3/52 (5%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISI---TDGACPDRIVTVSGSVDN 72
+V+ +IG G ++ ++R E I DG P +T++G N
Sbjct: 22 TVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKN 73
Score = 34.0 bits (78), Expect = 0.014
Identities = 12/87 (13%), Positives = 31/87 (35%), Gaps = 2/87 (2%)
Query: 281 KDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKK--MFHIQG 338
+D + + + +IG+ G+ + +IR I + ++ I G
Sbjct: 10 EDRALRSFKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITG 69
Query: 339 CQEAVSLAQYLINMCIELQKNNTTNTS 365
++ A+ I + + + +S
Sbjct: 70 YEKNTEAARDAILRIVGELEQMSGPSS 96
>2dgr_A Ring finger and KH domain-containing protein 1; structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 83
Score = 53.0 bits (127), Expect = 2e-09
Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 4/70 (5%)
Query: 119 CSPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNP 178
S +++ +P G ++G G IK I+ + + E + V G P
Sbjct: 5 SSGGQTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGR----DKEPVFAVTGMP 60
Query: 179 DTISQAIYQI 188
+ + +A +I
Sbjct: 61 ENVDRAREEI 70
Score = 44.9 bits (106), Expect = 1e-06
Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 2/84 (2%)
Query: 279 GGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQG 338
G + ++ + + G V+G G+ + I+Q + I + +F + G
Sbjct: 1 GSSGSSGGQTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTP--GRDKEPVFAVTG 58
Query: 339 CQEAVSLAQYLINMCIELQKNNTT 362
E V A+ I I L+ ++
Sbjct: 59 MPENVDRAREEIEAHITLRSGPSS 82
Score = 34.9 bits (80), Expect = 0.006
Identities = 10/40 (25%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 33 LIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSVDN 72
++GP G ++R+++ + I +T G + + V+G +N
Sbjct: 24 VVGPKGATIKRIQQRTHTYI-VTPGRDKEPVFAVTGMPEN 62
>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 104
Score = 52.1 bits (125), Expect = 8e-09
Identities = 13/66 (19%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 123 PLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTIS 182
P+ +++ +P +IG+ G I+ + D N+ V + P I+ + G +
Sbjct: 16 PVTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPA---PELQSDIIAITGLAANLD 72
Query: 183 QAIYQI 188
+A +
Sbjct: 73 RAKAGL 78
Score = 40.9 bits (96), Expect = 7e-05
Identities = 10/49 (20%), Positives = 19/49 (38%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSVDN 72
V + +IG G +R++ E I + I+ ++G N
Sbjct: 22 EVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITGLAAN 70
Score = 36.7 bits (85), Expect = 0.002
Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 1/68 (1%)
Query: 288 VETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVSLAQ 347
V E+ + D+ VIG+ GS + ++ I++ E + I G + A+
Sbjct: 17 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHV-PAPELQSDIIAITGLAANLDRAK 75
Query: 348 YLINMCIE 355
+ ++
Sbjct: 76 AGLLERVK 83
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens}
SCOP: d.51.1.1 PDB: 1vih_A
Length = 71
Score = 49.3 bits (118), Expect = 4e-08
Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 126 LKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAI 185
+++ I LIGK G I I+D +V++ D ++ + G+P + QA
Sbjct: 7 VEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPD---SEKSNLIRIEGDPQGVQQAK 63
Query: 186 YQI 188
++
Sbjct: 64 REL 66
Score = 41.6 bits (98), Expect = 2e-05
Identities = 8/64 (12%), Positives = 22/64 (34%), Gaps = 6/64 (9%)
Query: 9 IDEDTLITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSG 68
I+ + + ++ LIG G + R++ + + I + ++ + G
Sbjct: 1 INRMDYVEIN------IDHKFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEG 54
Query: 69 SVDN 72
Sbjct: 55 DPQG 58
Score = 33.5 bits (77), Expect = 0.014
Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 1/66 (1%)
Query: 285 DDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVS 344
+ EI + +IGK+G+ + I+ + I + I+G + V
Sbjct: 2 NRMDYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRI-PPDSEKSNLIRIEGDPQGVQ 60
Query: 345 LAQYLI 350
A+ +
Sbjct: 61 QAKREL 66
>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing
factor, RNA binding protein; 2.30A {Pyrococcus
horikoshii} PDB: 3aev_B
Length = 219
Score = 52.4 bits (125), Expect = 5e-08
Identities = 30/160 (18%), Positives = 52/160 (32%), Gaps = 18/160 (11%)
Query: 33 LIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSVDNSSTSSVETGYPGHTLWVTSV 92
LIG G + + K + KI+I V ++ + + +V
Sbjct: 48 LIGKKGQTKKEIEKRTKTKITIDS---ETGEVWITSTKETEDPLAVWKARDIVLAIGRGF 104
Query: 93 DNVCTAYNFMCRSLEDYHINRNRMENCSPQPLQLKLVIPATHCGSLIGKGGCKIKDIRDL 152
R L + N + + + G +IG+ G + I ++
Sbjct: 105 S-----PERAFRLLNEGEYLEII--NLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEM 157
Query: 153 SGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQICLVL 192
SGA+V V + V + GNP I A I +
Sbjct: 158 SGASVSVY--------GKTVAIIGNPIQIEIAKTAIEKLA 189
Score = 38.5 bits (89), Expect = 0.002
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 1/62 (1%)
Query: 127 KLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIY 186
+ IP LIGK G K+I + + + S+ + +P + +A
Sbjct: 37 YVKIPKDRIAVLIGKKGQTKKEIEKRTKTKITIDSETGEV-WITSTKETEDPLAVWKARD 95
Query: 187 QI 188
+
Sbjct: 96 IV 97
Score = 36.6 bits (84), Expect = 0.009
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 6/56 (10%)
Query: 300 GCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVSLAQYLINMCIE 355
G +IG+ G I ++SGA ++++ T I G + +A+ I
Sbjct: 141 GRIIGRKGRTRQIIEEMSGASVSVYGKT------VAIIGNPIQIEIAKTAIEKLAR 190
>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains,
type I domains, fragIle X mental retardation protein,
RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A
Length = 144
Score = 49.2 bits (117), Expect = 2e-07
Identities = 31/175 (17%), Positives = 54/175 (30%), Gaps = 54/175 (30%)
Query: 33 LIGPGGCIVRRLRKESGA-KISITDGACPDRIVTVSGSVDNSSTSSVETGYPGHTLWVTS 91
IG G +++ RK G I + + C I + S +E
Sbjct: 18 AIGTHGANIQQARKVPGVTAIDLDEDTCTFHIYGEDQDAVKKARSFLE------------ 65
Query: 92 VDNVCTAYNFMCRSLEDYHINRNRMENCSPQPLQLKLVIPATHCGSLIGKGGCKIKDIRD 151
+ + +P G +IGK G I++I D
Sbjct: 66 -------------------------------FAEDVIQVPRNLVGKVIGKNGKLIQEIVD 94
Query: 152 LSGAN-VQVASDMLPMSTERI----VTVHGNPDTISQAIYQICLVLIECTLQVVK 201
SG V++ ++ + G D+I+ A VL++ L +K
Sbjct: 95 KSGVVRVRIEAENEKNVPQEEGMVPFVFVGTKDSIANA-----TVLLDYHLNYLK 144
Score = 40.8 bits (95), Expect = 2e-04
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 286 DFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGA-QINI------HTGTESHKKMFHIQG 338
+F E I + ++ G VIGK G + EI SG ++ I + E F G
Sbjct: 65 EFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKNVPQEEGMVPFVFVG 124
Query: 339 CQEAVSLAQYLINMCIE 355
+++++ A L++ +
Sbjct: 125 TKDSIANATVLLDYHLN 141
Score = 35.0 bits (80), Expect = 0.014
Identities = 9/68 (13%), Positives = 19/68 (27%), Gaps = 7/68 (10%)
Query: 123 PLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGA-NVQVASDMLPMSTERIVTVHGNPDTI 181
+ ++ G IG G I+ R + G + + D ++G
Sbjct: 3 RFHEQFIVREDLMGLAIGTHGANIQQARKVPGVTAIDLDED------TCTFHIYGEDQDA 56
Query: 182 SQAIYQIC 189
+
Sbjct: 57 VKKARSFL 64
Score = 31.1 bits (70), Expect = 0.32
Identities = 15/66 (22%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 291 EIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGC-QEAVSLAQYL 349
+ ++ +D+ G IG G+ + + R++ G + FHI G Q+AV A+
Sbjct: 7 QFIVREDLMGLAIGTHGANIQQARKVPGVTAIDL---DEDTCTFHIYGEDQDAVKKARSF 63
Query: 350 INMCIE 355
+ +
Sbjct: 64 LEFAED 69
Score = 28.8 bits (64), Expect = 2.0
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 8/78 (10%)
Query: 3 GNGDGKIDEDTLITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGA-KISI---TDGA 58
G + + V N + +IG G +++ + +SG ++ I +
Sbjct: 51 GEDQDAVKKARSFLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKN 110
Query: 59 CPDRI----VTVSGSVDN 72
P G+ D+
Sbjct: 111 VPQEEGMVPFVFVGTKDS 128
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 52.2 bits (124), Expect = 2e-07
Identities = 46/336 (13%), Positives = 96/336 (28%), Gaps = 112/336 (33%)
Query: 149 IRDLSGANVQVASDMLP--MSTERIVTVHGNPDTISQAIYQICLVLIECTLQVVKGAV-- 204
+ + +VQ DM +S E I + + D +S ++ L+ ++V+ V
Sbjct: 30 VDNFDCKDVQ---DMPKSILSKEEIDHIIMSKDAVSG-TLRLFWTLLSKQEEMVQKFVEE 85
Query: 205 ------------IPYEPKTMNAGP------------VILSGGQAYTLHGEYAVP------ 234
I E + P + + Q + +Y V
Sbjct: 86 VLRINYKFLMSPIKTEQR----QPSMMTRMYIEQRDRLYNDNQVFA---KYNVSRLQPYL 138
Query: 235 -VQEVAGKKQPHPLAGLAVLGIEGIGSTSLTPAALAALSGSRVKS-----------GGKD 282
+++ + +P + + G+ G G T + AL +V+ +
Sbjct: 139 KLRQALLELRPAK--NVLIDGVLGSGKTWV---ALDVCLSYKVQCKMDFKIFWLNLKNCN 193
Query: 283 TGDDFVETEIVLTDDIAGCV-IGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQE 341
+ + +E L I + + S ++ IH+ +++ + +
Sbjct: 194 SPETVLEMLQKL------LYQIDPNWTSRSD--HSSNIKLRIHSIQAELRRLLKSKPYEN 245
Query: 342 AVSLAQYLI--NMCIELQKNNTTNTSDNPEPADLDAAISAF-------MT---ASVNSSL 389
L+ N+ N + A +AF +T V L
Sbjct: 246 C-----LLVLLNVQ-------------NAK------AWNAFNLSCKILLTTRFKQVTDFL 281
Query: 390 IEKPTPHPGSMVTLGGLSE-----LLANIAASNVKS 420
T H L+ LL +
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD 317
Score = 48.7 bits (115), Expect = 3e-06
Identities = 44/301 (14%), Positives = 77/301 (25%), Gaps = 90/301 (29%)
Query: 1 MDGN------GDGKIDEDTLITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISI 54
MD + E L ++ L + I P S
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLY----------QIDPNWT-------------SR 216
Query: 55 TDGACPDRIVTVSGSVDNSSTSSVETGYPGHTLWVTSVDNVCT-----AYNFMCRSL--- 106
+D + ++ S Y + L V + NV A+N C+ L
Sbjct: 217 SDHSSNIKLRIHSIQ-AELRRLLKSKPYE-NCLLV--LLNVQNAKAWNAFNLSCKILLTT 272
Query: 107 ------------EDYHINRNRME----------------NCSPQ--PLQLKLVIPATHCG 136
HI+ + +C PQ P ++ P
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL-- 330
Query: 137 SLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQICLVL---- 192
S+I + I+D V D L E + V P + ++ V
Sbjct: 331 SIIAE---SIRDGLATWDNWKHVNCDKLTTIIESSLNVL-EPAEY-RKMFDRLSVFPPSA 385
Query: 193 -I-ECTLQVVKGAVIPYEPKTMNAGPVILS------GGQAYTLHGEYAVPVQEVAGKKQP 244
I L ++ VI + + S ++ Y ++ +
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Query: 245 H 245
H
Sbjct: 446 H 446
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 46.7 bits (111), Expect = 4e-07
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 2/63 (3%)
Query: 126 LKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAI 185
+ + +IG G I+ I D +++ VTV G P+ + +AI
Sbjct: 19 EDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSG--APDPNCVTVTGLPENVEEAI 76
Query: 186 YQI 188
I
Sbjct: 77 DHI 79
Score = 40.1 bits (94), Expect = 1e-04
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGAKISITD-GACPDRIVTVSGSVDN 72
++ + +IG G +R++ E I GA VTV+G +N
Sbjct: 22 PLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPEN 71
Score = 34.4 bits (79), Expect = 0.012
Identities = 13/77 (16%), Positives = 27/77 (35%), Gaps = 1/77 (1%)
Query: 285 DDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVS 344
+ V ++ L + +IG G + +I I + G E V
Sbjct: 14 EQMVSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPENVE 73
Query: 345 LA-QYLINMCIELQKNN 360
A +++N+ E ++
Sbjct: 74 EAIDHILNLEEEYLADS 90
>1tua_A Hypothetical protein APE0754; structural genomics, protein
structure initiative, MCSG, four layers alpha-beta
sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1
d.51.1.1
Length = 191
Score = 47.3 bits (112), Expect = 2e-06
Identities = 25/166 (15%), Positives = 53/166 (31%), Gaps = 31/166 (18%)
Query: 33 LIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGSVDNSSTSSVETGYPGHTLWVTSV 92
+IGP G + + + +G I++ ++ S V + ++
Sbjct: 18 VIGPRGEVKAEIMRRTGTVITV-----------------DTENSMVIVEPEAEGIPPVNL 60
Query: 93 DNVCTAYNFMCRSLEDYHINRNRMENCSPQPLQLKLVI------PATHCGSLIGKGGCKI 146
+ R E+ + LK V+ G +IG+GG
Sbjct: 61 MKAAEVVKAISLGFPPEKAFRLLEEDQILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRAR 120
Query: 147 KDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQICLVL 192
+ I +++ + V E V + G+ + A I ++
Sbjct: 121 RTIEEMTDTYINVG--------EYEVAIIGDYERAMAAKQAIEMLA 158
Score = 36.9 bits (85), Expect = 0.005
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 6/56 (10%)
Query: 300 GCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVSLAQYLINMCIE 355
G +IG+ G I +++ IN+ I G E A+ I M E
Sbjct: 110 GRIIGEGGRARRTIEEMTDTYINVGEYE------VAIIGDYERAMAAKQAIEMLAE 159
Score = 36.5 bits (84), Expect = 0.008
Identities = 10/73 (13%), Positives = 26/73 (35%), Gaps = 6/73 (8%)
Query: 123 PLQLKLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTIS 182
++ + + G++IG G +I +G + V ++ +V V + I
Sbjct: 3 KPRIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITVDTE------NSMVIVEPEAEGIP 56
Query: 183 QAIYQICLVLIEC 195
+++
Sbjct: 57 PVNLMKAAEVVKA 69
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 49.3 bits (117), Expect = 2e-06
Identities = 48/310 (15%), Positives = 84/310 (27%), Gaps = 133/310 (42%)
Query: 98 AYNFMCRSLEDYHINRNRMENCSPQPLQLKLVIPATHCGSLIGKGGCKIKD-----IRDL 152
Y F S+ D I N P+ L H G G+ G +I++ I +
Sbjct: 1656 TYGF---SILD--IVIN-------NPVNL-----TIHFG---GEKGKRIRENYSAMIFET 1695
Query: 153 SGANVQVASDMLPMSTERI--VTVHGNPDTISQAIY-QICLVLIEC-TLQVVKGA-VIPY 207
+ E T +S + Q L L+E + +K +IP
Sbjct: 1696 IVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIP- 1754
Query: 208 EPKTMNAGPVILSGGQAYTLH--GEYAVPVQEVAGKKQPHPLAGLAVLGIEGIGSTSLTP 265
T AG H GEYA
Sbjct: 1755 ADATF-AG------------HSLGEYA--------------------------------- 1768
Query: 266 AALAALSGS----------------------RVKSGGKDTGDDFVE-TEIVLT---DDIA 299
ALA+L+ R + G + G + + + + +
Sbjct: 1769 -ALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQ 1827
Query: 300 GCV--IGKAGSRLLEI-------RQ--ISGAQINIHTGTESHKKMFHIQGCQEAVSLAQY 348
V +GK L+EI +Q +G ++ ++ +
Sbjct: 1828 YVVERVGKRTGWLVEIVNYNVENQQYVAAG----------------DLRALDTVTNVLNF 1871
Query: 349 LINMCIELQK 358
+ I++ +
Sbjct: 1872 IKLQKIDIIE 1881
Score = 42.7 bits (100), Expect = 2e-04
Identities = 70/481 (14%), Positives = 127/481 (26%), Gaps = 205/481 (42%)
Query: 15 ITMR--CLFHSSVNVNEISCLIGPGGCIVR--RLRKESGAKISI-TDGACPDRIVTVSGS 69
+ R L H S+ E L+ P +L+++ + T+G D
Sbjct: 4 YSTRPLTLSHGSL---EHVLLV-PTASFFIASQLQEQFNKILPEPTEGFAAD-------- 51
Query: 70 VDNSSTSSVETGYPGHTLWVTSVDNVCTAYNFMCRSLEDYHINRNRMENCSPQPLQ-LKL 128
+ T+ E L F+ +++ + Q Q L L
Sbjct: 52 --DEPTTPAE-------LVGK----------FLG------YVSSLVEPSKVGQFDQVLNL 86
Query: 129 VIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQI 188
+ L G DI L A+ +L + +V + +
Sbjct: 87 CLTEFENCYLEGN------DIHAL-------AAKLLQENDTTLVKTK----ELIKNYITA 129
Query: 189 CLVLIECTLQVVKGAVIPYEPKTMNAGPVILS---GGQ----AY-----TLHGEYAVPVQ 236
++ + A+ + + G L GGQ Y L+ Y V V
Sbjct: 130 RIMAKRPFDKKSNSALF----RAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 237 EV--------------AGKKQPHPLAGLAVLG-IEG-------------------IGSTS 262
++ + GL +L +E IG
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245
Query: 263 L------------TPAALAA-LSGSRVKSGG---------KDTGDDFVETEIVLTDDIAG 300
L TP L + L G+ S G D+ + F
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFV----------- 294
Query: 301 CVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQG--CQEAVSLAQYLINMCIELQK 358
+ + + + +F I G C EA
Sbjct: 295 -----SVRKAITV-------------------LFFI-GVRCYEAYP-------------- 315
Query: 359 NNTTNTSDNPEPADLDAAISAFMTASVNSSLIEKPTPHPGSMVTLGGLS--ELLANIAAS 416
NTS P+ L+ ++ P+P M+++ L+ ++ + +
Sbjct: 316 ----NTS--LPPSILEDSLENNEGV---------PSP----MLSISNLTQEQVQDYVNKT 356
Query: 417 N 417
N
Sbjct: 357 N 357
Score = 40.8 bits (95), Expect = 9e-04
Identities = 51/270 (18%), Positives = 84/270 (31%), Gaps = 96/270 (35%)
Query: 41 VRRL-RKESGAKISITDGACP-DRIVTVSGSVDNSSTSSVETGYPGHTLWVTSVDNVCTA 98
+ L +++ ++ T+ P + V +S + N + + V +G P
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEIS--LVNGAKNLVVSGPP--------------- 383
Query: 99 YNFMCRSLEDYHINRN-RMENCSP---Q---PL-QLKLVI-----PAT---HCGSLIGKG 142
+SL Y +N R Q P + KL P H L+
Sbjct: 384 -----QSL--YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS-HLLVPA 435
Query: 143 GCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIYQICLVLIECTLQVVKG 202
I DL NV + + +I V+ DT + L+V+ G
Sbjct: 436 SDLINK--DLVKNNVSFNAKDI-----QI-PVY---DTFDGS-----------DLRVLSG 473
Query: 203 AVIPYEPKTMNAGPVILSGGQAYTLHGEYAVPVQ-EVAGKKQP-HPL---AGLAVLGIEG 257
++ I+ +PV+ E + + H L G G G
Sbjct: 474 SISE------RIVDCIIR------------LPVKWETTTQFKATHILDFGPG----GASG 511
Query: 258 IGSTSLTPAALAALSGSRVKSGGK-DTGDD 286
+G LT +G RV G D D
Sbjct: 512 LG--VLT-HRNKDGTGVRVIVAGTLDINPD 538
Score = 35.4 bits (81), Expect = 0.043
Identities = 56/342 (16%), Positives = 108/342 (31%), Gaps = 110/342 (32%)
Query: 149 IRDLSGANVQVASDML------PMSTERIVTVHG--------NPDTISQAIY----QICL 190
+ DL ++ +++ L + E++ T G NP Y I
Sbjct: 184 VGDL----IKFSAETLSELIRTTLDAEKVFT-QGLNILEWLENPSNTPDKDYLLSIPISC 238
Query: 191 VLIECTLQ----VVKGAVIPYEPKTMNAGPVILSGGQAYTLHGEY---AVPVQEVAGKKQ 243
LI +Q VV ++ + P + + L G T H + AV + E +
Sbjct: 239 PLI-GVIQLAHYVVTAKLLGFTPGELRS---YLKGA---TGHSQGLVTAVAIAETDSWES 291
Query: 244 PHPLAGLAV-----LGIEG---IGSTSLTPAALAALSGSRVKSG-G--------KDTGDD 286
A+ +G+ +TSL P+ L +++ G + +
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE----DSLENNEGVPSPMLSISNLTQE 347
Query: 287 FVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINIHTGTESHKKMFHIQGCQEAVSLA 346
V+ + K S L +Q+ + +N K + G
Sbjct: 348 QVQD-----------YVNKTNSHLPAGKQVEISLVN------GA-KNLVVSG------PP 383
Query: 347 QYLINMCIELQKNNTTNTSDNPEPADLD----------AAISA-F--MTASVNSSLIEKP 393
Q L + + L+K P+ LD S F + + +S L+
Sbjct: 384 QSLYGLNLTLRKAKA--------PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 394 TPHPGSMVTLGGLSELLANIAASNVKSTV-QT-TGAYRRDVE 433
+ + L + + A +++ V T G+ R +
Sbjct: 436 SD-----LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS 472
Score = 28.5 bits (63), Expect = 6.3
Identities = 8/61 (13%), Positives = 21/61 (34%), Gaps = 13/61 (21%)
Query: 25 VNVNEISCLIGPGGC--IVRRLRKESGAKISITDGA---CPDRIVTVSGSVDNSSTSSVE 79
+N ++ +V R+ K +G + I ++ +G + ++
Sbjct: 1812 INPGRVAASFSQEALQYVVERVGKRTGWLVEI---VNYNVENQQYVAAGDLRA-----LD 1863
Query: 80 T 80
T
Sbjct: 1864 T 1864
>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 40.9 bits (96), Expect = 5e-05
Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 4/64 (6%)
Query: 126 LKLVIPATHCGSLIGKGGCKIKDIRD-LSGANVQVASDMLPMSTERIVTVHGNPDTISQA 184
+++ IPA SLIG G I+ I + G ++ S V + G + +A
Sbjct: 19 VEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPV---EGSGSDTVVIRGPSSDVEKA 75
Query: 185 IYQI 188
Q+
Sbjct: 76 KKQL 79
Score = 34.4 bits (79), Expect = 0.012
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 24 SVNVNEISCLIGPGGCIVRRLRKESGA-KISITDGACPDRIVTVSGSVDN 72
S+ + LIG G ++R + +E G I V + G +
Sbjct: 22 SIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPVEGSGSDTVVIRGPSSD 71
>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA
binding, cell cycle; 2.79A {Caenorhabditis elegans}
Length = 376
Score = 43.8 bits (102), Expect = 7e-05
Identities = 35/305 (11%), Positives = 85/305 (27%), Gaps = 35/305 (11%)
Query: 126 LKLVIPATHCGSLIGKGGCK--IKDIRDLSGANVQV----ASDMLPMSTERIVTVHGNPD 179
L + + + + G + I + +Q+ P + VT+ G
Sbjct: 32 LNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITGYFG 91
Query: 180 TISQA---IYQICLVLIECTLQVVKGAVIPYEPKTMNAGPVILSGGQAYTLHGEYAVPVQ 236
+ +A + + C + L +K + + V + Q +
Sbjct: 92 DVDRARMLMRRNCHFTVFMALSKMKMPLHELQA------HVRQNPIQNVEMS-------- 137
Query: 237 EVAGKKQPHPLAGLAVLGIEGIGSTSLTPAALAALSG-SRVKSGGKDTGDDFVETEIVLT 295
G+ + + A + + ++ L+
Sbjct: 138 ----FVDAPEKNGIVTTYLRITAREKNQHELIEAAKRLNEILFRESPAPENNFTLHFTLS 193
Query: 296 DDIAGCVIGKAGSRLL--EIRQISGAQI-----NIHTGTESHKKMFHIQGCQEAVSLAQY 348
V+G + + L I + + I N T + + G + V A+
Sbjct: 194 TYYVDQVLGSSSTAQLMPVIERETTTIISYPCYNNRNETRGNIYEIKVVGNIDNVLKARR 253
Query: 349 LINMCIELQKNNTTNTSDNPEPADLDAAISAFMTASVNSSLIEKPTPHPGSMVTLGGLSE 408
I + + +D EP+ + + L P+ + + + G +
Sbjct: 254 YIMDLLPISMCFNIKNTDMAEPSRVSDRNIHMIIDESGIILKMTPSVYEPADLLSGEVPL 313
Query: 409 LLANI 413
A++
Sbjct: 314 NCASL 318
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 40.6 bits (96), Expect = 9e-04
Identities = 12/45 (26%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 25 VNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGS 69
V +++ + +GPGG +++L+ E+G IS D + +V
Sbjct: 573 VPLSKRAKFVGPGGYNLKKLQAETGVTISQVD----EETFSVFAP 613
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 40.6 bits (96), Expect = 0.001
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 10/56 (17%)
Query: 14 LITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGS 69
+ T+ + ++I +IG GG ++R + +GAK+ I D D +V VS S
Sbjct: 571 IETIN------IPTDKIREVIGSGGKVIREIVATTGAKVDIND----DGVVKVSAS 616
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 39.8 bits (94), Expect = 0.001
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 10/56 (17%)
Query: 14 LITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGS 69
+ T++ +N ++I +IG GG ++R L +E+G I I D D V ++ +
Sbjct: 561 IHTIK------INPDKIKDVIGKGGSVIRALTEETGTTIEIED----DGTVKIAAT 606
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 39.5 bits (93), Expect = 0.002
Identities = 13/56 (23%), Positives = 33/56 (58%), Gaps = 10/56 (17%)
Query: 14 LITMRCLFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISITDGACPDRIVTVSGS 69
+IT++ + V++I +IGP ++ ++++++GA+I+I D D + + +
Sbjct: 599 IITVK------IPVDKIGEVIGPKRQMINQIQEDTGAEITIED----DGTIYIGAA 644
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins,
RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Length = 140
Score = 35.3 bits (81), Expect = 0.012
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 26 NVNEISCLIGPGGCIVRRLRKESGAKISI 54
+ N + ++GP G ++L E+G KI +
Sbjct: 15 DFNFVGRILGPRGLTAKQLEAETGCKIMV 43
>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA
recognition, complex E, KH domain, QUA2 homology; NMR
{Homo sapiens} SCOP: d.51.1.1
Length = 131
Score = 34.8 bits (80), Expect = 0.016
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 26 NVNEISCLIGPGGCIVRRLRKESGAKISI 54
+N + LIGP G ++ + KE AKI I
Sbjct: 20 EINFVGLLIGPRGNTLKNIEKECNAKIMI 48
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 33.7 bits (77), Expect = 0.029
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 20 LFHSSVNVNEISCLIGPGGCIVRRLRKESGAKISI 54
L H+ N + GPG ++ ++ E+GAK+ +
Sbjct: 20 LEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFL 54
Score = 27.2 bits (60), Expect = 4.5
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 7/46 (15%)
Query: 121 PQPLQLKLVIPATH-------CGSLIGKGGCKIKDIRDLSGANVQV 159
+Q KL + H + G G ++ I+ +GA V +
Sbjct: 9 MHYVQDKLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFL 54
>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 102
Score = 31.0 bits (70), Expect = 0.17
Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 5/62 (8%)
Query: 127 KLVIPATHCGSLIGKGGCKIKDIRDLSGANVQVASDMLPMSTERIVTVHGNPDTISQAIY 186
+ P+ +IGK G + I V + E +T+ G + +S A
Sbjct: 30 SVAAPSWLHRFIIGKKGQNLAKITQQMP-KVHIEFT----EGEDKITLEGPTEDVSVAQE 84
Query: 187 QI 188
QI
Sbjct: 85 QI 86
>1pgu_A Actin interacting protein 1; WD repeat, seven-bladed
beta-propeller, protein binding; 2.30A {Saccharomyces
cerevisiae} SCOP: b.69.4.1 b.69.4.1 PDB: 1pi6_A
Length = 615
Score = 31.8 bits (73), Expect = 0.53
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 8/42 (19%)
Query: 60 PD--RIVTVSGSVDNSSTS-SVETGYP-----GHTLWVTSVD 93
+ R+ V DN S ++G GH+ + +
Sbjct: 126 FEGRRLCVVGEGRDNFGVFISWDSGNSLGEVSGHSQRINACH 167
Score = 30.3 bits (69), Expect = 1.4
Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 66 VSGSVDNSSTS-SVETGYPGHTLWVTSV 92
+SGS D S + + H+ + S+
Sbjct: 351 ISGSYDGRIMEWSSSSMHQDHSNLIVSL 378
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 31.4 bits (72), Expect = 0.62
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 6/40 (15%)
Query: 56 DGACPDRIVTVSGSVDNS-STSSVETG--YPGHTLWVTSV 92
G D+I +G+ + S+ Y H+ T
Sbjct: 29 AG---DKIQYCNGTSVYTVPVGSLTDTEIYTEHSHQTTVA 65
>2mys_B Myosin; muscle protein, motor protein; HET: MLY; 2.80A {Gallus
gallus} SCOP: a.39.1.5 PDB: 1i84_U* 1m8q_B* 1mvw_B*
1o18_E* 1o19_B* 1o1a_B* 1o1b_B* 1o1c_B* 1o1d_B* 1o1e_B*
1o1f_B* 1o1g_B* 2w4a_B 2w4g_B 2w4h_B
Length = 166
Score = 29.9 bits (68), Expect = 0.94
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 1 MDGNGDGKIDEDTL-ITMRCLFHSSVNVNEISCLIGPG-GCI 40
+D N DG ID+D L T + +V E+ +I G I
Sbjct: 34 IDQNADGIIDKDDLRETFAAMGRLNVKNEELDAMIKEASGPI 75
>2sas_A Sarcoplasmic calcium-binding protein; 2.40A {Branchiostoma
lanceolatum} SCOP: a.39.1.5
Length = 185
Score = 29.9 bits (67), Expect = 1.2
Identities = 5/37 (13%), Positives = 12/37 (32%)
Query: 1 MDGNGDGKIDEDTLITMRCLFHSSVNVNEISCLIGPG 37
+ G D + + +S + + L+G
Sbjct: 148 ITDGGKVTFDLNRYKELYYRLLTSPAADAGNTLMGQK 184
>2pm9_A Protein WEB1, protein transport protein SEC31; beta propeller;
3.30A {Saccharomyces cerevisiae}
Length = 416
Score = 30.0 bits (68), Expect = 1.5
Identities = 5/33 (15%), Positives = 11/33 (33%), Gaps = 6/33 (18%)
Query: 66 VSGSVDNS------STSSVETGYPGHTLWVTSV 92
+S DN+ ++ + +P W
Sbjct: 279 LSSGRDNTVLLWNPESAEQLSQFPARGNWCFKT 311
>3dwl_C Actin-related protein 2/3 complex subunit 1; propellor,
actin-binding, ATP-binding, cytoskeleton, nucleot
binding, WD repeat; HET: ATP; 3.78A
{Schizosaccharomyces pombe}
Length = 377
Score = 30.1 bits (68), Expect = 1.5
Identities = 8/42 (19%), Positives = 12/42 (28%), Gaps = 8/42 (19%)
Query: 60 PDRIVTVSGSVDNS------STSSVETGYP--GHTLWVTSVD 93
R V+ + N + + H VT VD
Sbjct: 21 SQRTEFVTTTATNQVELYEQDGNGWKHARTFSDHDKIVTCVD 62
>2bb3_A Cobalamin biosynthesis precorrin-6Y methylase (CB; beta,
alpha-beta-alpha sandwich, structural genomics, PSI, P
structure initiative; HET: SAH; 2.27A {Archaeoglobus
fulgidus} SCOP: c.90.1.1
Length = 221
Score = 29.7 bits (67), Expect = 1.5
Identities = 7/47 (14%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 236 QEVAGKKQPHPLAG-LAVLGIEGIGSTSLTPAALAALSGSRVKSGGK 281
+G++ + + ++G G T A + + V G +
Sbjct: 9 HHSSGRENLYFSGHMIWIVGS-GTCRGQTTERAKEIIERAEVIYGSR 54
>2ovr_B FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40 domains, double
phosphorylation, transcription-C complex; HET: TPO;
2.50A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1 PDB:
2ovp_B* 2ovq_B*
Length = 445
Score = 29.9 bits (68), Expect = 1.6
Identities = 14/42 (33%), Positives = 16/42 (38%), Gaps = 12/42 (28%)
Query: 60 PDRIVTVSGSVDNSSTS---SVETGYP-----GHTLWVTSVD 93
R+V SGS D T +ETG GH V V
Sbjct: 209 EKRVV--SGSRDA--TLRVWDIETGQCLHVLMGHVAAVRCVQ 246
Score = 29.2 bits (66), Expect = 2.5
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 11/42 (26%)
Query: 60 PDRIVTVSGSVDNS-------STSSVET--GYPGHTLWVTSV 92
+ +V SG+ D++ + ++T G H VT +
Sbjct: 329 DNILV--SGNADSTVKIWDIKTGQCLQTLQGPNKHQSAVTCL 368
Score = 28.8 bits (65), Expect = 3.8
Identities = 13/41 (31%), Positives = 17/41 (41%), Gaps = 12/41 (29%)
Query: 60 PDRIVTVSGSVDNSSTS---SVETGYP-----GHTLWVTSV 92
+ I+ SGS D T + ETG GHT V +
Sbjct: 169 DNIII--SGSTDR--TLKVWNAETGECIHTLYGHTSTVRCM 205
>3ow8_A WD repeat-containing protein 61; structural genomics consortium,
SGC, transcriptio; 2.30A {Homo sapiens}
Length = 321
Score = 29.7 bits (68), Expect = 1.7
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 8/41 (19%)
Query: 60 PDRIVTVSGSVDNS------STSSVETGYP--GHTLWVTSV 92
+ V+GS+D+ ++ + GH L V SV
Sbjct: 46 ENSETVVTGSLDDLVKVWKWRDERLDLQWSLEGHQLGVVSV 86
>2cxc_A NUSA; transcription termination, RNA binding protein, archaeal NUS
domain, structural genomics, NPPSFA; 2.00A {Aeropyrum
pernix} PDB: 2cy1_A
Length = 144
Score = 28.8 bits (65), Expect = 1.7
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 127 KLVIPATHCGSLIGKGGCKIKDIRDLSGANVQV 159
++ G IG+GG IK +R+ G N++V
Sbjct: 39 IFLVSEGEAGRAIGRGGRLIKLLREALGKNIEV 71
Score = 28.8 bits (65), Expect = 1.8
Identities = 10/55 (18%), Positives = 21/55 (38%)
Query: 269 AALSGSRVKSGGKDTGDDFVETEIVLTDDIAGCVIGKAGSRLLEIRQISGAQINI 323
G +++S + + I +++D G IGK G + R + +
Sbjct: 84 NLFPGVKIESINVRERNGVKQVVIKVSEDDKGAAIGKGGKNVKRARLVLSKLFGV 138
Score = 27.3 bits (61), Expect = 6.9
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 25 VNVNEISCLIGPGGCIVRRLRKESGAKISI 54
V+ E IG GG +++ LR+ G I +
Sbjct: 42 VSEGEAGRAIGRGGRLIKLLREALGKNIEV 71
>1k8k_C P40, ARP2/3 complex 41 kDa subunit, P41-ARC; beta-propeller,
structural protein; 2.00A {Bos taurus} SCOP: b.69.4.1
PDB: 1tyq_C* 1u2v_C* 2p9i_C* 2p9k_C* 2p9l_C 2p9n_C*
2p9p_C* 2p9s_C* 2p9u_C* 3rse_C 3dxm_C* 3dxk_C
Length = 372
Score = 29.5 bits (67), Expect = 1.9
Identities = 8/42 (19%), Positives = 12/42 (28%), Gaps = 8/42 (19%)
Query: 60 PDRIVTVSGSVDNS------STSSVETGYP--GHTLWVTSVD 93
DR ++ S + + H VT VD
Sbjct: 18 KDRTQIAICPNNHEVHIYEKSGNKWVQVHELKEHNGQVTGVD 59
>3frx_A Guanine nucleotide-binding protein subunit beta- like protein;
RACK1, WD40, beta propeller, ribosome, translation,
acetylation; 2.13A {Saccharomyces cerevisiae} PDB:
3izb_a 3o2z_T 3o30_T 3u5c_g 3u5g_g 3rfg_A 3rfh_A 1trj_A
3jyv_R*
Length = 319
Score = 29.4 bits (67), Expect = 2.0
Identities = 8/38 (21%), Positives = 13/38 (34%), Gaps = 11/38 (28%)
Query: 66 VSGSVDNS------STSSVETGYP-----GHTLWVTSV 92
+S S D + + + G P GH+ V
Sbjct: 34 LSASRDKTLISWKLTGDDQKFGVPVRSFKGHSHIVQDC 71
>3ei3_B DNA damage-binding protein 2; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Danio rerio} PDB: 3ei1_B* 3ei2_B*
4a08_B* 4a09_B* 4a0a_B* 4a0b_B* 4a0k_D* 4a0l_B*
Length = 383
Score = 29.2 bits (66), Expect = 2.4
Identities = 6/36 (16%), Positives = 10/36 (27%), Gaps = 8/36 (22%)
Query: 66 VSGSVDNS------STSSVETGYP--GHTLWVTSVD 93
S+ + S S ++ W VD
Sbjct: 135 FVSSIRGATTLRDFSGSVIQVFAKTDSWDYWYCCVD 170
>4aow_A Guanine nucleotide-binding protein subunit beta-2; receptor,
WD-repeat, beta-propeller; 2.45A {Homo sapiens} PDB:
2zkq_a
Length = 340
Score = 29.4 bits (67), Expect = 2.5
Identities = 9/38 (23%), Positives = 15/38 (39%), Gaps = 11/38 (28%)
Query: 66 VSGSVDNS------STSSVETGYP-----GHTLWVTSV 92
+S S D + + G P GH+ +V+ V
Sbjct: 55 LSASRDKTIIMWKLTRDETNYGIPQRALRGHSHFVSDV 92
>3j04_B Myosin regulatory light chain 2, smooth muscle MA isoform;
phosphorylation, 2D crystalline arrays, myosin
regulation, M light chains, structural protein; 20.00A
{Gallus gallus}
Length = 143
Score = 28.2 bits (64), Expect = 2.6
Identities = 7/21 (33%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 1 MDGNGDGKIDEDTL-ITMRCL 20
+D N DG ID++ L + +
Sbjct: 16 IDQNRDGFIDKEDLHDMLASM 36
>2vdu_B TRNA (guanine-N(7)-)-methyltransferase- associated WD repeat
protein TRM82; S-adenosyl-L-methionine, tRNA processing,
phosphorylation, M7G, spout MT, WD repeat; 2.40A
{Saccharomyces cerevisiae}
Length = 450
Score = 29.3 bits (65), Expect = 2.7
Identities = 8/44 (18%), Positives = 14/44 (31%), Gaps = 9/44 (20%)
Query: 56 DGACPDRIVTVSGSVDNS-------STSSVETGYPGHTLWVTSV 92
D I+ + D V+ GH +V+S+
Sbjct: 206 DSDGHQFII--TSDRDEHIKISHYPQCFIVDKWLFGHKHFVSSI 247
>3f3f_A Nucleoporin SEH1; structural protein, protein complex, nucleopori
complex, nuclear pore complex, macromolecular assembly,
MEM coat; 2.90A {Saccharomyces cerevisiae} PDB: 3f3g_A
3f3p_A 3ewe_A
Length = 351
Score = 29.2 bits (66), Expect = 2.7
Identities = 4/45 (8%), Positives = 14/45 (31%), Gaps = 10/45 (22%)
Query: 56 DGACPDRIVTVSGSVDNS------STSSVETGYP--GHTLWVTSV 92
P+++ +++ + + GH + S+
Sbjct: 178 SRFSPEKLA--VSALEQAIIYQRGKDGKLHVAAKLPGHKSLIRSI 220
>1q80_A SCP, sarcoplasmic calcium-binding protein; all-alpha, metal binding
protein; NMR {Neanthes diversicolor} SCOP: a.39.1.5 PDB:
2scp_A
Length = 174
Score = 28.5 bits (64), Expect = 2.7
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 1 MDGNGDGKIDEDTLITM 17
+D N DG + + +
Sbjct: 137 IDTNNDGLLSLEEFVIA 153
>2hps_A Coelenterazine-binding protein with bound coelent; bioluminescence,
southeast collabora structural genomics, secsg,
structural genomics, PSI; HET: CTZ; 1.72A {Renilla
muelleri} PDB: 2hq8_A
Length = 186
Score = 28.6 bits (64), Expect = 2.8
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 1 MDGNGDGKIDEDTLITM 17
+D N +G+I D +
Sbjct: 147 LDFNKNGQISRDEFLVT 163
>1got_B GT-beta; complex (GTP-binding/transducer), G protein, heterotrimer
signal transduction; HET: GDP; 2.00A {Bos taurus} SCOP:
b.69.4.1 PDB: 1b9y_A 1b9x_A* 2trc_B 1tbg_A 1gg2_B*
1omw_B 1gp2_B 1xhm_A 2qns_A 3ah8_B* 3cik_B 3kj5_A
3krw_B* 3krx_B* 3psc_B 3pvu_B* 3pvw_B* 1a0r_B* 2bcj_B*
3sn6_B*
Length = 340
Score = 29.0 bits (66), Expect = 2.9
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 6/39 (15%)
Query: 60 PDRIVTVSGSVD------NSSTSSVETGYPGHTLWVTSV 92
D + +S S D +S T++ P + WV +
Sbjct: 65 TDSRLLLSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTC 103
>1wdc_B Scallop myosin; calcium binding protein, muscle protein; 2.00A
{Argopecten irradians} SCOP: a.39.1.5 PDB: 1kk7_Y
1kqm_B* 1kwo_B* 1l2o_B* 1qvi_Y* 1s5g_Y* 1sr6_B 1b7t_Y
3jtd_B 3jvt_B 1scm_B 1kk8_B* 1dfk_Y 1dfl_Y* 2w4t_Y
2w4v_Y 2w4w_Y 2otg_B* 2os8_B* 3pn7_B ...
Length = 156
Score = 28.2 bits (64), Expect = 3.1
Identities = 4/21 (19%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 1 MDGNGDGKIDEDTL-ITMRCL 20
+D + DG + ++ + L
Sbjct: 27 IDVDRDGFVSKEDIKAISEQL 47
>2hes_X YDR267CP; beta-propeller, WD40 repeat, biosynthetic protein;
1.70A {Saccharomyces cerevisiae}
Length = 330
Score = 28.7 bits (65), Expect = 3.3
Identities = 7/43 (16%), Positives = 10/43 (23%), Gaps = 12/43 (27%)
Query: 60 PDRIVTVSGSVDNS-----STSSVETGYP-----GHTLWVTSV 92
+ +GS D T H + SV
Sbjct: 24 QGILA--TGSTDRKIKLVSVKYDDFTLIDVLDETAHKKAIRSV 64
>2ovk_B RLC, myosin regulatory light chain LC-2, mantle muscle;
rigor-like, squid, contractIle protein; 2.60A
{Todarodes pacificus} PDB: 2ekv_B 2ekw_B 2oy6_B*
3i5f_B* 3i5g_B 3i5h_B 3i5i_B
Length = 153
Score = 28.3 bits (64), Expect = 3.3
Identities = 6/21 (28%), Positives = 9/21 (42%), Gaps = 1/21 (4%)
Query: 1 MDGNGDGKIDEDTL-ITMRCL 20
+D + DG I + L L
Sbjct: 25 IDQDRDGFIGMEDLKDMFSSL 45
>3dtp_E RLC, myosin regulatory light chain; muscle protein, smooth
muscle, myosin subfragment 2, heavy meromyosin,
essential light chain; 20.00A {Avicularia avicularia}
Length = 196
Score = 28.4 bits (64), Expect = 3.5
Identities = 6/21 (28%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 1 MDGNGDGKIDEDTL-ITMRCL 20
+D + DG I ++ + T L
Sbjct: 66 IDQDKDGFISKNDIRATFDSL 86
>3dm0_A Maltose-binding periplasmic protein fused with RACK1; MBP RACK1A,
receptor for activiated protein C-kinase 1,
beta-propeller WD40 repeat; HET: GLC; 2.40A {Escherichia
coli}
Length = 694
Score = 28.9 bits (65), Expect = 3.6
Identities = 10/38 (26%), Positives = 13/38 (34%), Gaps = 11/38 (28%)
Query: 66 VSGSVDNS------STSSVETGYP-----GHTLWVTSV 92
VS S D S + G GH+ +V V
Sbjct: 399 VSASRDKSIILWKLTKDDKAYGVAQRRLTGHSHFVEDV 436
Score = 27.7 bits (62), Expect = 8.6
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 9/36 (25%)
Query: 66 VSGSVDNS---------STSSVETGYPGHTLWVTSV 92
VS S D + ++ G GH WV+ V
Sbjct: 488 VSASRDRTIKLWNTLGECKYTISEGGEGHRDWVSCV 523
Score = 27.7 bits (62), Expect = 10.0
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 60 PD--RIVTVSGSVDNS------STSSVETGYPGHTLWVTSV 92
P+ + VS S D + S + + GHT +V++V
Sbjct: 527 PNTLQPTIVSASWDKTVKVWNLSNCKLRSTLAGHTGYVSTV 567
>2ccm_A Calexcitin; EF hand, calcium, signaling protein; 1.8A {Loligo
pealeii}
Length = 191
Score = 28.3 bits (63), Expect = 4.0
Identities = 1/17 (5%), Positives = 5/17 (29%)
Query: 1 MDGNGDGKIDEDTLITM 17
+ G + + +
Sbjct: 152 LSDGGKTMVTREIFARL 168
>2hpk_A Photoprotein berovin; structural genomics, PSI, protein structure
initiative, southeast collaboratory for structural
genomics, secsg; 2.00A {Beroe abyssicola}
Length = 208
Score = 28.2 bits (63), Expect = 4.0
Identities = 4/17 (23%), Positives = 9/17 (52%)
Query: 1 MDGNGDGKIDEDTLITM 17
D + GK++ L+ +
Sbjct: 171 ADTDKSGKLERTELVHL 187
>3akb_A Putative calcium binding protein; EF-hand, metal binding protein;
1.50A {Streptomyces coelicolor} PDB: 3aka_A
Length = 166
Score = 28.2 bits (63), Expect = 4.0
Identities = 6/24 (25%), Positives = 13/24 (54%)
Query: 1 MDGNGDGKIDEDTLITMRCLFHSS 24
+D +GDGK+ E ++ + +
Sbjct: 141 LDTDGDGKVGETEIVPAFARYFTV 164
>1gxr_A ESG1, transducin-like enhancer protein 1; transcriptional
CO-repressor, WD40, transcription repressor, WD repeat;
1.65A {Homo sapiens} SCOP: b.69.4.1 PDB: 2ce8_A 2ce9_A
Length = 337
Score = 28.6 bits (65), Expect = 4.2
Identities = 7/33 (21%), Positives = 9/33 (27%), Gaps = 5/33 (15%)
Query: 66 VSGSVDNS-----STSSVETGYPGHTLWVTSVD 93
VS DN + + V S D
Sbjct: 281 VSTGKDNLLNAWRTPYGASIFQSKESSSVLSCD 313
Score = 27.8 bits (63), Expect = 6.3
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 5/32 (15%)
Query: 66 VSGSVDNSSTS-SVETGYP----GHTLWVTSV 92
+G +DN+ S + G T + S+
Sbjct: 199 WTGGLDNTVRSWDLREGRQLQQHDFTSQIFSL 230
Score = 27.8 bits (63), Expect = 6.8
Identities = 6/40 (15%), Positives = 10/40 (25%), Gaps = 7/40 (17%)
Query: 59 CPDRIVTVSGSVDNS------STSSVETGYPGHTLWVTSV 92
CP G ++ + H V S+
Sbjct: 233 CPTGEWLAVGMESSNVEVLHVNKPDKYQ-LHLHESCVLSL 271
>1nya_A Calerythrin; EF-hand, metal binding protein; NMR {Saccharopolyspora
erythraea} SCOP: a.39.1.5
Length = 176
Score = 28.2 bits (63), Expect = 4.3
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 1 MDGNGDGKIDEDTLITM 17
+D NG+G++ D L+T
Sbjct: 145 VDTNGNGELSLDELLTA 161
>3vl1_A 26S proteasome regulatory subunit RPN14; beta-propeller, chaperone,
RPT6; 1.60A {Saccharomyces cerevisiae} PDB: 3acp_A
Length = 420
Score = 28.7 bits (65), Expect = 4.4
Identities = 11/41 (26%), Positives = 14/41 (34%), Gaps = 10/41 (24%)
Query: 60 PDRIVTVSGSVDNSSTS---SVETGYP-----GHTLWVTSV 92
P +S S D SV+ G GH VT +
Sbjct: 149 PSGEALISSSQDM--QLKIWSVKDGSNPRTLIGHRATVTDI 187
>1w7j_B Myosin light chain 1; motor protein, unconventional myosin,
myosin V, chicken, molecular motor, ATPase, ELC, IQ
motif, muscle protein, ATP-binding; HET: ADP; 2A {Homo
sapiens} SCOP: a.39.1.5 PDB: 1w7i_B* 1oe9_B* 3j04_C
1br1_B* 1br4_B* 1i84_T* 3dtp_C 2w4a_C 2w4g_C 2w4h_C
Length = 151
Score = 27.6 bits (62), Expect = 4.5
Identities = 9/20 (45%), Positives = 9/20 (45%), Gaps = 1/20 (5%)
Query: 2 DGNGDGKIDEDTLIT-MRCL 20
D GDGKI MR L
Sbjct: 20 DRVGDGKILYSQCGDVMRAL 39
>1vyh_C Platelet-activating factor acetylhydrolase IB alpha subunit;
lissencephaly, platelet activacting factor, regulator of
cytoplasmic dynein; 3.4A {Mus musculus} SCOP: b.69.4.1
Length = 410
Score = 28.7 bits (65), Expect = 4.5
Identities = 14/35 (40%), Positives = 15/35 (42%), Gaps = 10/35 (28%)
Query: 66 VSGSVDNSSTS---SVETGYP-----GHTLWVTSV 92
VS S D T V+TGY GH WV V
Sbjct: 208 VSASRDK--TIKMWEVQTGYCVKTFTGHREWVRMV 240
>3v7d_B Cell division control protein 4; WD 40 domain, phospho-peptide
complex, E3 ubiquitin ligase, cell cycle, phospho
binding protein, phosphorylation; HET: SEP; 2.31A
{Saccharomyces cerevisiae} PDB: 1nex_B* 3mks_B*
Length = 464
Score = 28.4 bits (64), Expect = 4.7
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 10/41 (24%)
Query: 60 PDRIVTVSGSVDNSSTS---SVETGYP-----GHTLWVTSV 92
+R +S S+D T +E G GHT V +
Sbjct: 320 HERKRCISASMDT--TIRIWDLENGELMYTLQGHTALVGLL 358
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 28.3 bits (64), Expect = 4.8
Identities = 6/40 (15%), Positives = 9/40 (22%), Gaps = 8/40 (20%)
Query: 60 PDRIVTVSGSVDNS-------STSSVETGYPGHTLWVTSV 92
D IV + T + HT +
Sbjct: 76 QDIIVQSARPYGQRAVLKFAQYTGAHAI-AGRHTPGTFTN 114
>1m45_A MLC1P, myosin light chain; protein-peptide complex, myosin light
chain, cell cycle protein; 1.65A {Saccharomyces
cerevisiae} SCOP: a.39.1.5 PDB: 1m46_A 1n2d_A 2fcd_A
2fce_A
Length = 148
Score = 27.6 bits (62), Expect = 5.4
Identities = 7/20 (35%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 2 DGNGDGKIDEDTLIT-MRCL 20
D G G I +D+L +R +
Sbjct: 14 DKKGQGAIAKDSLGDYLRAI 33
>4e54_B DNA damage-binding protein 2; beta barrel, double helix, DDB1:WD40
beta-barrel fold, DNA D DNA repair, HOST-virus
interactions; HET: DNA 3DR; 2.85A {Homo sapiens} PDB:
3ei4_B*
Length = 435
Score = 28.5 bits (64), Expect = 5.4
Identities = 7/43 (16%), Positives = 9/43 (20%), Gaps = 11/43 (25%)
Query: 60 PD--RIVTVSGSVDNS------STSSVETGYP--GHTLWVTSV 92
P V GS T G +T +
Sbjct: 129 PTHPSTV-AVGSKGGDIMLWNFGIKDKPTFIKGIGAGGSITGL 170
>3i2n_A WD repeat-containing protein 92; WD40 repeats, structural genomics,
structural genomic consortium, SGC, apoptosis,
transcription; 1.95A {Homo sapiens}
Length = 357
Score = 28.1 bits (63), Expect = 5.5
Identities = 7/48 (14%), Positives = 14/48 (29%), Gaps = 13/48 (27%)
Query: 56 DGACPDRIVTVSGSVDNS------STSSVETGYP-----GHTLWVTSV 92
+++V + S++ T G+ H V V
Sbjct: 220 KDISMNKLV--ATSLEGKFHVFDMRTQHPTKGFASVSEKAHKSTVWQV 265
Score = 28.1 bits (63), Expect = 6.4
Identities = 10/67 (14%), Positives = 23/67 (34%), Gaps = 8/67 (11%)
Query: 37 GGCIVRRLRKESGAKISITDGAC-PDRIVTVSGSVDNS-STSSVETGYP------GHTLW 88
G + R +++ T GA + +G + ++E GH
Sbjct: 54 GDLKLLREIEKAKPIKCGTFGATSLQQRYLATGDFGGNLHIWNLEAPEMPVYSVKGHKEI 113
Query: 89 VTSVDNV 95
+ ++D +
Sbjct: 114 INAIDGI 120
>2xzm_R RACK1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_R
Length = 343
Score = 28.3 bits (64), Expect = 5.5
Identities = 7/41 (17%), Positives = 12/41 (29%), Gaps = 8/41 (19%)
Query: 60 PDRIVTVSGSVDNS------STSSVETGYP--GHTLWVTSV 92
PD +S + + H+ WV+ V
Sbjct: 128 PDNRQILSAGAEREIKLWNILGECKFSSAEKENHSDWVSCV 168
>3jro_A Fusion protein of protein transport protein SEC13 and nucleoporin
NUP145; protein complex, cytoplasmic vesicle,
endoplasmic reticulum, ER-golgi transport, membrane,
mRNA transport; 4.00A {Saccharomyces cerevisiae}
Length = 753
Score = 28.4 bits (63), Expect = 5.7
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 10/37 (27%)
Query: 66 VSGSVDNS-----STSSVETGY-----PGHTLWVTSV 92
V+G DN S +T GH+ WV V
Sbjct: 174 VTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDV 210
>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport
protein; 2.50A {Saccharomyces cerevisiae}
Length = 814
Score = 28.1 bits (63), Expect = 6.4
Identities = 9/51 (17%), Positives = 13/51 (25%), Gaps = 12/51 (23%)
Query: 50 AKISITDGACPDRIVTVSGSVDN-------SSTSSVETGYPGHTLWVTSVD 93
+ D SG +D ++ T G V VD
Sbjct: 146 VAFNPKDP---STFA--SGCLDRTVKVWSLGQSTPNFTLTTGQERGVNYVD 191
>2pbi_B Guanine nucleotide-binding protein subunit beta 5; helix WRAP, RGS
domain, DEP domain, DHEX domain, GGL domain, propeller,
signaling protein; 1.95A {Mus musculus}
Length = 354
Score = 27.9 bits (63), Expect = 6.6
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 6/39 (15%)
Query: 60 PDRIVTVSGSVD------NSSTSSVETGYPGHTLWVTSV 92
D+ VS S D +S T++ E WV +
Sbjct: 74 KDKRRIVSSSQDGKVIVWDSFTTNKEHAVTMPCTWVMAC 112
>1p22_A F-BOX/WD-repeat protein 1A; ubiquitination, degradation, signaling
protein; HET: SEP; 2.95A {Homo sapiens} SCOP: a.158.1.1
b.69.4.1
Length = 435
Score = 28.1 bits (63), Expect = 7.0
Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 15/66 (22%)
Query: 37 GGCIVRRLRKESGAKISIT----DGACPDRIVTVSGSVDNS-STSSVETGYP-----GHT 86
G ++R+ S + D +IV SG DN+ T GHT
Sbjct: 119 GRHSLQRIHCRSETSKGVYCLQYDD---QKIV--SGLRDNTIKIWDKNTLECKRILTGHT 173
Query: 87 LWVTSV 92
V +
Sbjct: 174 GSVLCL 179
>4ery_A WD repeat-containing protein 5; WD40, WIN motif, beta propeller,
3-10 helix, lysine methyltransferase, RBBP5, ASH2L, core
complex; 1.30A {Homo sapiens} PDB: 2h6k_A* 2h68_A*
2h6q_A* 3eg6_A 4erq_A 2h6n_A 2gnq_A 2xl2_A 2xl3_A
3uvk_A* 3psl_A* 3uvl_A 3uvm_A 3uvn_A 3uvo_A 2h14_A
2h13_A 3p4f_A 4a7j_A* 2h9l_A ...
Length = 312
Score = 27.8 bits (63), Expect = 7.2
Identities = 12/40 (30%), Positives = 13/40 (32%), Gaps = 6/40 (15%)
Query: 60 PDRIVTVSGSVDNS------STSSVETGYPGHTLWVTSVD 93
VSGS DN T + GHT V S
Sbjct: 247 TGGKWIVSGSEDNLVYIWNLQTKEIVQKLQGHTDVVISTA 286
>2pm7_B Protein transport protein SEC13, protein transport protein SEC31;
beta propeller, alpha solenoid; 2.35A {Saccharomyces
cerevisiae} PDB: 2pm9_B 2pm6_B 3iko_A 3mzk_A 3mzl_A
Length = 297
Score = 27.6 bits (62), Expect = 9.3
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 10/37 (27%)
Query: 66 VSGSVDNS-----STSSVETGY-----PGHTLWVTSV 92
V+G DN S +T GH+ WV V
Sbjct: 174 VTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDV 210
>3iz6_B 40S ribosomal protein S3 (S3P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
1s1h_C 3jyv_C*
Length = 227
Score = 27.0 bits (60), Expect = 9.7
Identities = 8/44 (18%), Positives = 24/44 (54%), Gaps = 7/44 (15%)
Query: 123 PLQLKLVIPATHCGSLIGKGGCKIKDIR-------DLSGANVQV 159
P++ +++I AT +++G+ G +I+++ + V++
Sbjct: 43 PMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFNFLENGVEL 86
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.133 0.385
Gapped
Lambda K H
0.267 0.0860 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,451,744
Number of extensions: 396003
Number of successful extensions: 1596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1503
Number of HSP's successfully gapped: 221
Length of query: 433
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 337
Effective length of database: 4,021,377
Effective search space: 1355204049
Effective search space used: 1355204049
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.3 bits)